BtaINT0013154 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019423 | ACSM2A
Description
Bos taurus acyl-CoA synthetase medium-chain family member 2A (ACSM2A), mRNA. [Source:RefSeq mRNA;Acc:NM_001101952]
Coordinates
chr25:18277525-18279227:+
Coord C1 exon
chr25:18277525-18277627
Coord A exon
chr25:18277628-18279042
Coord C2 exon
chr25:18279043-18279227
Length
1415 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GTCTTTTCTTTCCTTCATAGGTT
3' ss Score
12.47
Exon sequences
Seq C1 exon
GATTAGCTGTGCCATCCTCCAAGGCGACAGGGGTTCTGGTGCTGTCTGTTCAGGACGGAGACCAAGAGATCTCCAGAGAGACTTCCTTGAAAGGACTTGGCAG
Seq A exon
GTAAGCACGTTGTGAGGAATGAACAGATGGAGTCATGCTTCATGATGGCACTATCCAATCTTTAGAAGTCATGACTGGTGAGGAGAATGACAATCCACAGGGAAAAGTAGTCTGCAATCTCTAGGGACCAAGAAAGGTCTGCCAGGTCTTAGTGAGGAGGCAGCAGTGGGCAAAGGAAAAGGGAGTGTTTAGCACAGCAAAAGGGAAGGACTGGGGTGACTGAGAGAAAGGTGGTCAAATTGGGATGGAAGTTGGGTGGTAGTCAGGGAAGGAGGGCTCTAAGAGAAGGTGAGGCCAGAAGAATGAGAATGAGCCAGGTATGGAAAGAGAGAGGAATCAGCATGTAGAAAGGCAAAAGAATTTCCTGCCTGGGAGCTGGTAAGGAAATCTTCACTTTTTGTTCATTTAGAAAAGACAGGAAGGTCTTTAAGAGACCTTAAGCATTCTGACCGCTACTGCCCAAACAACAGGAAGTGGGAATCTGACCAGCTGGAGGAACTACTGGCTGGATTCCTTGCGTCAAAGGTCATTACACTTAAATTCTGCAATCCTCATCAAGGTGCACATGTTGGAAATCAGAGACCAGTAGATTTTGAACTACTTTGCCTGAAGCCAATGCAGAGACAGAAATGAAAATCCCAACAGTTATAATTTCTAAAGTAATGCTATTTGTCAGGTCCTGTGTGCTGAATACATAGTACTCAAGATATCTCAGTCAAGTATCAGTTAAAGAAAACAAATGCTGCTTGTATTAGTCAGTTTTTGCCATGATAGCAATCATCCTGAACATCTCAGATGCTTATATCCAAAAATATTTTCCTGTGAGTCTGGAAATTATCTGTGGCTCTACTAGGCTCAGCTCAAGTCAACATGCGTTCTGGGACCCAGGCTGGAGGTCGGCTCACTTGGGATATGCTGTTCTCACGGCATTGGCAGGAGGATTCTTTACCATCTGAGCCACCAGGGAGGCCATTTTCATGGCAGAGGGCATAAATGCAAGAGTCTCTGACCAAGTACACAAGCACATCCACTCATATCTCATTCTCCAAAGCATGTCCTATGGACAAGCCAAAGTCAACGAGAGGTGCATACACACTCTTCTCCAGAATGCACACGGAGTTTTTGGTAATCACAATTCAATCTACCACACTACTGTGTTTTAAGCACAAAAGGATTTATTGTGTGGAATTGGGTGTTCACAAAACTGTCAGAGGTGCTGGAAAAATAGGATTTAGAGCAGGTGCTGTGTTTTCAGAGAATGGTACATCAGAAGGTGACTAAGATAGATGCTGACTTCCAGTTCACTCATAATCACAGCAAATTAATTTCTGGAAGAATCCTGTAAGGTTGGAATGGGGCTCCTTAAGCAACTGCTGACTCTACAGACTCACCTCTGTCTTTTCTTTCCTTCATAG
Seq C2 exon
GTTTGAACATGCATTGGGGGCGGCAACTCCAGGCACTTTGCATCCTATGGAGGTCTCAGATGTCCAATCACACTATCCGCATTCATACTAGGCAACTGGCATCGCTGCAGTGGGGACACCAGGAAGTTCCTGCCAAATTTAACTTTGCTACTGATGTGATAGATCACTGGGCTGGCATGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019423:ENSBTAT00000025874:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.034
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0050123=AMP-binding=PU(1.0=5.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAGCTGTGCCATCCTCCAAG
R:
CTTCTCCATGCCAGCCCAGT
Band lengths:
286-1701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]